Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 87 of 103
Found at i:32106862 original size:99 final size:99
Alignment explanation
Indices: 32106691--32106891 Score: 402
Period size: 99 Copynumber: 2.0 Consensus size: 99
32106681 TCGTGACTTA
32106691 CCACATGACTACATAGAACAATTCCCACCAAATTAAAATAAAGGAAAATTTACAAAATGCAACAA
1 CCACATGACTACATAGAACAATTCCCACCAAATTAAAATAAAGGAAAATTTACAAAATGCAACAA
32106756 CATATGATCACGTAAATGAAAAGAATCACTATTT
66 CATATGATCACGTAAATGAAAAGAATCACTATTT
32106790 CCACATGACTACATAGAACAATTCCCACCAAATTAAAATAAAGGAAAATTTACAAAATGCAACAA
1 CCACATGACTACATAGAACAATTCCCACCAAATTAAAATAAAGGAAAATTTACAAAATGCAACAA
32106855 CATATGATCACGTAAATGAAAAGAATCACTATTT
66 CATATGATCACGTAAATGAAAAGAATCACTATTT
32106889 CCA
1 CCA
32106892 ATCAGAATAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 102 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (99 bp):
CCACATGACTACATAGAACAATTCCCACCAAATTAAAATAAAGGAAAATTTACAAAATGCAACAA
CATATGATCACGTAAATGAAAAGAATCACTATTT
Found at i:32108370 original size:76 final size:76
Alignment explanation
Indices: 32108237--32108380 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
32108227 CACCATTCAT
* ** * **
32108237 TCGGCAATTCATTAATTATTCAACTACAAAGAATGATGCATAACCAGCTTGAGTGAATGCTATCA
1 TCGGCAATTCATTAATTATTCAACAACAAAGAATGATGCATAACCAGCTCAAATGAATAATATCA
32108302 CAGGCACAAAA
66 CAGGCACAAAA
* * *
32108313 TCGGCAATTCATTGATTATTCAACAACAAAGAATGGTGCATTACCAGCTCAAATGAATAATATCA
1 TCGGCAATTCATTAATTATTCAACAACAAAGAATGATGCATAACCAGCTCAAATGAATAATATCA
32108378 CAG
66 CAG
32108381 TAACAAAAGC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 59 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (76 bp):
TCGGCAATTCATTAATTATTCAACAACAAAGAATGATGCATAACCAGCTCAAATGAATAATATCA
CAGGCACAAAA
Found at i:32116279 original size:80 final size:79
Alignment explanation
Indices: 32116140--32116294 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 79
32116130 TAAGATTTAC
* * * *
32116140 ATACATTAATTCCCATTTATATTAGATTGACCATGTTCCTTCTAACAGAACCATAAACACCAATT
1 ATACATTAATTCCCATATATATTAGACTCACCAGGTTCCTTCTAACAGAACCATAAACACCAATT
32116205 ATGTGATGCAGTAT
66 ATGTGATGCAGTAT
* *
32116219 ATACATTAGTTCCCATATATATTAGACTCACCAGGATTCCTTCTAACAGAAGCATAAACACCAAT
1 ATACATTAATTCCCATATATATTAGACTCACCAGG-TTCCTTCTAACAGAACCATAAACACCAAT
32116284 TATGTGATGCA
65 TATGTGATGCA
32116295 TGCAGGGAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 30 0.43
80 39 0.57
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (79 bp):
ATACATTAATTCCCATATATATTAGACTCACCAGGTTCCTTCTAACAGAACCATAAACACCAATT
ATGTGATGCAGTAT
Found at i:32121064 original size:3 final size:3
Alignment explanation
Indices: 32121058--32121083 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32121048 TGATGATGAT
32121058 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
32121084 AGATGATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:32121789 original size:12 final size:13
Alignment explanation
Indices: 32121772--32121806 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
32121762 TGGAGTTGAG
32121772 GATGAA-ATGAAT
1 GATGAAGATGAAT
32121784 GATGAAGATG-AT
1 GATGAAGATGAAT
32121796 GATGAAGATGA
1 GATGAAGATGA
32121807 GAAAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
GATGAAGATGAAT
Found at i:32127472 original size:2 final size:2
Alignment explanation
Indices: 32127465--32127518 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
32127455 GATGTTACTC
32127465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32127507 AT AT AT -T AT AT A
1 AT AT AT AT AT AT A
32127519 AAGAATTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32137932 original size:15 final size:15
Alignment explanation
Indices: 32137901--32137945 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
32137891 AATTTTTTAT
32137901 AATTAATTATTAA-TA
1 AATT-ATTATTAATTA
32137916 AATTATTATTAATTA
1 AATTATTATTAATTA
* *
32137931 AAATATCATTAATTA
1 AATTATTATTAATTA
32137946 TTTTTTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATTATTAATTA
Found at i:32138192 original size:30 final size:29
Alignment explanation
Indices: 32138158--32138258 Score: 121
Period size: 30 Copynumber: 3.4 Consensus size: 29
32138148 AATCATTAAT
32138158 TATAAAAATTTATTTAATATAAAATAAAAA
1 TATAAAAATTTATTTAAT-TAAAATAAAAA
* **
32138188 TATAAGAATTTATTTTGTTGAAAATAAAAA
1 TATAAAAATTTATTTAATT-AAAATAAAAA
**
32138218 TATAAAGTTTTATTTAATTTAAAATAAAAA
1 TATAAAAATTTATTTAA-TTAAAATAAAAA
*
32138248 TATAAATATTT
1 TATAAAAATTT
32138259 GATTAAACGT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 1 0.02
30 56 0.95
31 2 0.03
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
TATAAAAATTTATTTAATTAAAATAAAAA
Found at i:32165594 original size:2 final size:2
Alignment explanation
Indices: 32165587--32165627 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32165577 TTATTTCACC
32165587 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32165628 NTAGCTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32175389 original size:105 final size:106
Alignment explanation
Indices: 32175189--32175397 Score: 287
Period size: 105 Copynumber: 2.0 Consensus size: 106
32175179 AATTCGTGCT
* *
32175189 CGGGTAATGTAATCAATTACATTAGATAAGAATGTAATAGATGAATGTATCCACATGAACATGAT
1 CGGGTAATGTAATCAATTACATTAGATAAGAATGTAACAGATGAATGTATCCACACGAACATGAT
* * *
32175254 GTCATTAAATAATTAAATTGAAAGTGTGATTTTTGTAAATA
66 ATCATTAAATAACTAAATTGAAAGTATGATTTTTGTAAATA
* * * * *
32175295 CGGGTATTGTGATCAATTACATTAGATAAGGATGTAACAGAT-AATGTATCCACACGTATATGAT
1 CGGGTAATGTAATCAATTACATTAGATAAGAATGTAACAGATGAATGTATCCACACGAACATGAT
* *
32175359 ATCATTAAATAACTGAGTT-AAAGATATGATTTTTGTAAA
66 ATCATTAAATAACTAAATTGAAAG-TATGATTTTTGTAAA
32175398 AGCATCAGGA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
104 4 0.04
105 48 0.53
106 38 0.42
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (106 bp):
CGGGTAATGTAATCAATTACATTAGATAAGAATGTAACAGATGAATGTATCCACACGAACATGAT
ATCATTAAATAACTAAATTGAAAGTATGATTTTTGTAAATA
Found at i:32177945 original size:32 final size:32
Alignment explanation
Indices: 32177890--32177956 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
32177880 ATCACGTGAT
* ** * *
32177890 ATGCCACGTGGCATTGGTGTGATAACATGGTA
1 ATGCCACGTGGCACTAATATGATAACATGGCA
*
32177922 ATGCCACGTGGCACTAATATGATAACGTGGCA
1 ATGCCACGTGGCACTAATATGATAACATGGCA
32177954 ATG
1 ATG
32177957 TTGATGTGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (32 bp):
ATGCCACGTGGCACTAATATGATAACATGGCA
Found at i:32184310 original size:17 final size:18
Alignment explanation
Indices: 32184279--32184313 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32184269 TTAAAGTTTG
*
32184279 AATTTTTTTTAATTAAAA
1 AATTTTTATTAATTAAAA
32184297 AATTTTTATT-ATTAAAA
1 AATTTTTATTAATTAAAA
32184314 TAATGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTTTATTAATTAAAA
Found at i:32185583 original size:18 final size:20
Alignment explanation
Indices: 32185553--32185589 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
32185543 ATATTTTTGA
32185553 AAATATAATTT-AAATAAAG
1 AAATATAATTTAAAATAAAG
32185572 AAATAT-ATTTAAAATAAA
1 AAATATAATTTAAAATAAA
32185590 ATAATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATATAATTTAAAATAAAG
Found at i:32194046 original size:21 final size:22
Alignment explanation
Indices: 32194015--32194057 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
32194005 ATTACTTATT
* *
32194015 ATTAAGTCAAATATTGAATATA
1 ATTAAGTCAAATACTCAATATA
32194037 ATTAA-TCAAATACTCAATATA
1 ATTAAGTCAAATACTCAATATA
32194058 TATACATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (22 bp):
ATTAAGTCAAATACTCAATATA
Found at i:32194975 original size:21 final size:19
Alignment explanation
Indices: 32194938--32194976 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
32194928 TATAAACTTA
32194938 TTTAAAATTTTTTAAATAG
1 TTTAAAATTTTTTAAATAG
32194957 TTTAGAAATTTTTTGAAATA
1 TTTA-AAATTTTTT-AAATA
32194977 TTATGTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTAAAATTTTTTAAATAG
Found at i:32195873 original size:7 final size:7
Alignment explanation
Indices: 32195859--32195941 Score: 60
Period size: 7 Copynumber: 11.1 Consensus size: 7
32195849 TCATCATTTC
32195859 ATTTTTT
1 ATTTTTT
*
32195866 TTTATTTT
1 ATT-TTTT
* *
32195874 ATTTCATC
1 ATTT-TTT
32195882 ATTTTTTT
1 ATTT-TTT
32195890 ATTTTTTTT
1 A-TTT-TTT
32195899 ATTTTTT
1 ATTTTTT
32195906 AGTTTTTT
1 A-TTTTTT
*
32195914 -TTTTTA
1 ATTTTTT
*
32195920 ATTTTTA
1 ATTTTTT
32195927 ATTTTTT
1 ATTTTTT
32195934 ATTTTTT
1 ATTTTTT
32195941 A
1 A
32195942 AAACTGGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
6 5 0.08
7 27 0.44
8 22 0.35
9 8 0.13
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:32195879 original size:20 final size:20
Alignment explanation
Indices: 32195854--32195905 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
32195844 TTCATTCATC
32195854 ATTTCATTTTTTTTTATTTT
1 ATTTCATTTTTTTTTATTTT
*
32195874 ATTTCATCATTTTTTTATTTT
1 ATTTCAT-TTTTTTTTATTTT
*
32195895 -TTTTATTTTTT
1 ATTTCATTTTTT
32195906 AGTTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 12 0.43
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTCATTTTTTTTTATTTT
Found at i:32195880 original size:28 final size:25
Alignment explanation
Indices: 32195848--32195902 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 25
32195838 TTCCTATTCA
*
32195848 TTCATCATTTCATTTTTTTTTATTTTAT
1 TTCATCATTT--TTTTATTTT-TTTTAT
32195876 TTCATCATTTTTTTATTTTTTTTAT
1 TTCATCATTTTTTTATTTTTTTTAT
32195901 TT
1 TT
32195903 TTTAGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 8 0.31
28 10 0.38
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (25 bp):
TTCATCATTTTTTTATTTTTTTTAT
Found at i:32195914 original size:28 final size:27
Alignment explanation
Indices: 32195883--32195940 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
32195873 TATTTCATCA
* *
32195883 TTTTTTTATTTTTTTTATTTTTTAGTTTT
1 TTTTTTTA-ATTTTTAATTTTTTA-TTTT
32195912 TTTTTTTAATTTTTAATTTTTTATTTT
1 TTTTTTTAATTTTTAATTTTTTATTTT
32195939 TT
1 TT
32195941 AAAACTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.22
28 13 0.48
29 8 0.30
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (27 bp):
TTTTTTTAATTTTTAATTTTTTATTTT
Found at i:32195916 original size:20 final size:20
Alignment explanation
Indices: 32195891--32195939 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
32195881 CATTTTTTTA
* *
32195891 TTTTTTTTATTTTTTAGTTT
1 TTTTTTTTAATTTTTAATTT
32195911 TTTTTTTTAATTTTTAATTT
1 TTTTTTTTAATTTTTAATTT
32195931 TTTATTTTT
1 TTT-TTTTT
32195940 TAAAACTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTTTTTAATTTTTAATTT
Found at i:32196098 original size:27 final size:26
Alignment explanation
Indices: 32196072--32196124 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
32196062 AAAAATATAT
**
32196072 TATTCTTTA-ATTTTAATTTTAAAATA
1 TATT-TTTATATTTTAATACTAAAATA
32196098 TATTTTTATTATTTTAATACTAAAATA
1 TATTTTTA-TATTTTAATACTAAAATA
32196125 ATATGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTTTTATATTTTAATACTAAAATA
Found at i:32211825 original size:29 final size:29
Alignment explanation
Indices: 32211781--32211874 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
32211771 TCCGTGTATG
32211781 TGCAGTTGCTGATTATTTGGATAAAGACA
1 TGCAGTTGCTGATTATTTGGATAAAGACA
*
32211810 TGCAGTTGCTGTTTATTTGGATAAAGACA
1 TGCAGTTGCTGATTATTTGGATAAAGACA
* * *
32211839 TGCAGTTGTTGGTTATTTGGATTAAGACA
1 TGCAGTTGCTGATTATTTGGATAAAGACA
32211868 TGCAGTT
1 TGCAGTT
32211875 ACTTGTAGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.38
Consensus pattern (29 bp):
TGCAGTTGCTGATTATTTGGATAAAGACA
Found at i:32211938 original size:20 final size:20
Alignment explanation
Indices: 32211905--32211942 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32211895 AAACTTCCTT
32211905 TTAACCTTGTAATCCATGCC
1 TTAACCTTGTAATCCATGCC
32211925 TTAACACTTG-AATCCATG
1 TTAAC-CTTGTAATCCATG
32211943 TCTTGACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (20 bp):
TTAACCTTGTAATCCATGCC
Found at i:32216302 original size:20 final size:21
Alignment explanation
Indices: 32216266--32216304 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32216256 AAACTTCCTT
32216266 TTAACACTTGTAATCCATGCC
1 TTAACACTTGTAATCCATGCC
32216287 TTAACACTTG-AATCCATG
1 TTAACACTTGTAATCCATG
32216305 TCTTGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAACACTTGTAATCCATGCC
Found at i:32220942 original size:26 final size:26
Alignment explanation
Indices: 32220912--32220965 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
32220902 TTCATGTTAC
32220912 ATAGTTTATTTGATGATTGACTGTTT
1 ATAGTTTATTTGATGATTGACTGTTT
32220938 ATAGTTTATTTGATGATTGACTGTTT
1 ATAGTTTATTTGATGATTGACTGTTT
32220964 AT
1 AT
32220966 TCACTCTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.54
Consensus pattern (26 bp):
ATAGTTTATTTGATGATTGACTGTTT
Found at i:32221532 original size:6 final size:6
Alignment explanation
Indices: 32221521--32221546 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32221511 TGGGTTGCAA
32221521 CAAAAG CAAAAG CAAAAG CAAAAG CA
1 CAAAAG CAAAAG CAAAAG CAAAAG CA
32221547 TATGTTGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.15, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:32224658 original size:22 final size:22
Alignment explanation
Indices: 32224630--32224671 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
32224620 CTAAGCTCAC
32224630 GTTTATTCTAGCTATTGCATAA
1 GTTTATTCTAGCTATTGCATAA
32224652 GTTTATTCTAGCTATTGCAT
1 GTTTATTCTAGCTATTGCAT
32224672 TTTCGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (22 bp):
GTTTATTCTAGCTATTGCATAA
Found at i:32227616 original size:153 final size:153
Alignment explanation
Indices: 32227353--32227632 Score: 406
Period size: 153 Copynumber: 1.8 Consensus size: 153
32227343 TCTTACCAAA
* *
32227353 ATTTTACAAACATCAATTTTTACATCAAAATATTACAGAACACAGGCACTACTGTTGCATTAGAT
1 ATTTTACAAACATCAATTGTTACATCAAAAAATTACAGAACACAGGCACTACTGTTGCATTAGAT
* * *
32227418 ATTACATATGAGACTGAAAATATACAGATATTATGATGCAGGAGCATTCCAG-ATTTAGTCTCGA
66 ATTACATATGAGACTGAAAATATACAGAGATTATGACGCAAGAGCATTCCAGAATTTA-TCTCGA
32227482 TAAGTAATGTCCAATAACAGCAAC
130 TAAGTAATGTCCAATAACAGCAAC
* * *
32227506 ATTTTAC-AACAATCAATTGTTATATCAAAAAATTACAGAATATAGGCACTACTGTTGCATTAGA
1 ATTTTACAAAC-ATCAATTGTTACATCAAAAAATTACAGAACACAGGCACTACTGTTGCATTAGA
* *
32227570 TATTACATGA-GTGACT-AAAAGTATCCAGAGATTATGACGCAAGAGCATTCCAGAATTTATCTC
65 TATTACAT-ATGAGACTGAAAA-TATACAGAGATTATGACGCAAGAGCATTCCAGAATTTATCTC
32227633 AATCAGTTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
152 7 0.06
153 100 0.88
154 6 0.05
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (153 bp):
ATTTTACAAACATCAATTGTTACATCAAAAAATTACAGAACACAGGCACTACTGTTGCATTAGAT
ATTACATATGAGACTGAAAATATACAGAGATTATGACGCAAGAGCATTCCAGAATTTATCTCGAT
AAGTAATGTCCAATAACAGCAAC
Found at i:32229585 original size:29 final size:29
Alignment explanation
Indices: 32229543--32229601 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
32229533 AAAAATAAGT
32229543 AAATTTATTTAGAATACATCAATGCAAGG
1 AAATTTATTTAGAATACATCAATGCAAGG
32229572 AAATTTATTTAGAATACATCAATGCAAGG
1 AAATTTATTTAGAATACATCAATGCAAGG
32229601 A
1 A
32229602 CATATAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (29 bp):
AAATTTATTTAGAATACATCAATGCAAGG
Found at i:32238267 original size:30 final size:30
Alignment explanation
Indices: 32238231--32238289 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
32238221 TTTGAGTCTG
32238231 ATTCAATCAATCAAAGGCTGAGAAAGCTTT
1 ATTCAATCAATCAAAGGCTGAGAAAGCTTT
32238261 ATTCAATCAATCAAAGGCTGAGAAAGCTT
1 ATTCAATCAATCAAAGGCTGAGAAAGCTT
32238290 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (30 bp):
ATTCAATCAATCAAAGGCTGAGAAAGCTTT
Found at i:32239534 original size:22 final size:20
Alignment explanation
Indices: 32239482--32239551 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 20
32239472 TTTTTAAATA
32239482 TTAAAATTTT-ATAATTTAT
1 TTAAAATTTTAATAATTTAT
*
32239501 TTAAAATATTAATAATTGGTAAT
1 TTAAAATTTTAATAATT--T-AT
* *
32239524 TT-AAATTTTAATATTTTGT
1 TTAAAATTTTAATAATTTAT
*
32239543 TTATAATTT
1 TTAAAATTT
32239552 AATCATTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 12 0.29
20 12 0.29
22 13 0.32
23 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TTAAAATTTTAATAATTTAT
Found at i:32239552 original size:19 final size:19
Alignment explanation
Indices: 32239530--32239582 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
32239520 TAATTTAAAT
*
32239530 TTTAATATTTTGTTTATAA
1 TTTAATATTTTGTATATAA
*
32239549 TTTAATCATTAGTAGTATATAA
1 TTTAAT-ATT--TTGTATATAA
32239571 TATTAATATTTT
1 T-TTAATATTTT
32239583 ATTCTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
19 6 0.22
20 4 0.15
22 12 0.44
23 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTAATATTTTGTATATAA
Found at i:32239554 original size:41 final size:42
Alignment explanation
Indices: 32239485--32239585 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
32239475 TTAAATATTA
* * *
32239485 AAATTTT-ATAATTTATTTAAAATATTAATAATTGGTAATTT
1 AAATTTTAATATTTTATTTAAAATATTAATAATTAGTAATAT
* * * *
32239526 AAATTTTAATATTTTGTTTATAAT-TTAATCATTAGTAGTAT
1 AAATTTTAATATTTTATTTAAAATATTAATAATTAGTAATAT
*
32239567 ATAATATTAATATTTTATT
1 A-AATTTTAATATTTTATT
32239586 CTTAATTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 21 0.43
42 28 0.57
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (42 bp):
AAATTTTAATATTTTATTTAAAATATTAATAATTAGTAATAT
Found at i:32239655 original size:21 final size:21
Alignment explanation
Indices: 32239606--32239656 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32239596 TGTTATTATG
*
32239606 ATAATTTATTTTTATTTTATT
1 ATAATTTATTTTTATTATATT
* *
32239627 TTATTTTATTTTTA-TATATT
1 ATAATTTATTTTTATTATATT
32239647 AATAATTTAT
1 -ATAATTTAT
32239657 AATATATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATAATTTATTTTTATTATATT
Found at i:32239738 original size:163 final size:160
Alignment explanation
Indices: 32239464--32239940 Score: 590
Period size: 163 Copynumber: 3.0 Consensus size: 160
32239454 TATAACTATT
*
32239464 TTTTATTTTTTTTAAATATTAA-AATTTTATAATTTATTTAAAATATTAATAATTGGTAATTTAA
1 TTTTATTTTTTTTAAATATTAATAA-TTTATAATTTATTTAAAATATTAATAATTGATAATTTAA
* * * ** * *
32239528 ATTTTAATATTTTGTTTATAATTTAATCATTAGTAGTATATAATATTAATATTTTATTCTTAA-T
65 ATATTAACATTTT-ATTATAATTTAATCATTAACATTATAAAATATTAATATTTTATT-TTAATT
*
32239592 TAAATGTTATTATGATAATTTATTTTTATTTTA
128 TAAATGTTATTATGATTATTTATTTTTATTTTA
* * *
32239625 TTTTATTTTATTTTTATATATTAATAATTTATAATATATTTAAAATATTAATAATTGATCATTTA
1 TTTTA-TTT-TTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTA
* * * * *
32239690 AATATTAACATTTTACCTCTAATATAATGATTAACATTATAAAATATTAATATTTTATTATAATT
64 AATATTAACATTTTA-TTATAATTTAATCATTAACATTATAAAATATTAATATTTTATTTTAATT
* * *
32239755 TAAATATTATTATAATTATTTACTTTTATTTTA
128 TAAATGTTATTATGATTATTTATTTTTATTTTA
* * *
32239788 TTTCA--TTTTTTAAATATT-ATAATTTATAATTTATGTAAAATATTAATAATTGATTATTTAAA
1 TTTTATTTTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTAAA
* * *
32239850 TATCAACATGTTATTATAATTTAATCATT-ACTATT-TAAAAATATTAATATATTATTTATAATT
66 TATTAACATTTTATTATAATTTAATCATTAAC-ATTAT-AAAATATTAATATTTTATTT-TAATT
32239913 TAAATGTTATTATGATTATTTATTTTTA
128 TAAATGTTATTATGATTATTTATTTTTA
32239941 AATATTAATA
Statistics
Matches: 272, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
156 3 0.01
157 33 0.12
158 82 0.30
159 11 0.04
160 1 0.00
161 5 0.02
162 6 0.02
163 129 0.47
164 2 0.01
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (160 bp):
TTTTATTTTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTAAA
TATTAACATTTTATTATAATTTAATCATTAACATTATAAAATATTAATATTTTATTTTAATTTAA
ATGTTATTATGATTATTTATTTTTATTTTA
Found at i:32239775 original size:20 final size:19
Alignment explanation
Indices: 32239726--32239776 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
32239716 ATGATTAACA
32239726 TTATAA-AATATT-AATATT
1 TTATAATAAT-TTAAATATT
*
32239744 TTATTATAATTTAAATATT
1 TTATAATAATTTAAATATT
*
32239763 ATTATAATTATTTA
1 -TTATAATAATTTA
32239777 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
19 9 0.33
20 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATAATAATTTAAATATT
Found at i:32239870 original size:59 final size:57
Alignment explanation
Indices: 32239802--32239963 Score: 149
Period size: 59 Copynumber: 2.8 Consensus size: 57
32239792 ATTTTTTAAA
32239802 TATTATAATTTATAATTTATGTAAAATATTAATAATTGATTATTTA-AATATCAACATGT
1 TATTATAATTTATAATTTAT-TAAAATATTAATAATTGATTATTTATAAT-TCAA-ATGT
* *
32239861 TATTATAATTTAATCATTACTATTTAAAAATATTAAT-A-T-ATTATTTATAATTTAAATGT
1 TATTATAATTT-ATAATT--TA-TT-AAAATATTAATAATTGATTATTTATAATTCAAATGT
* * *
32239920 TATTATGA-TTATTTATTT-TT-AAATATTAATAATTGATAATTTAT
1 TATTATAATTTA-TAATTTATTAAAATATTAATAATTGATTATTTAT
32239964 TTAAAATATT
Statistics
Matches: 88, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
52 10 0.11
53 1 0.01
54 3 0.03
55 8 0.09
56 1 0.01
57 1 0.01
58 6 0.07
59 22 0.25
60 16 0.18
61 4 0.05
62 4 0.05
63 12 0.14
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (57 bp):
TATTATAATTTATAATTTATTAAAATATTAATAATTGATTATTTATAATTCAAATGT
Found at i:32239939 original size:141 final size:140
Alignment explanation
Indices: 32239785--32240169 Score: 538
Period size: 141 Copynumber: 2.7 Consensus size: 140
32239775 TACTTTTATT
*
32239785 TTATTTCATTTTTTAAATATT-ATAATTTATAATTTATGTAAAATATTAATAATTGATTATTTAA
1 TTATTT-A-TTTTTAAATATTAATAATTTATAATTTAT-TAAAATATTAATAATTGATAATTTAA
* * * * *
32239849 ATATCAACATGTTATTATAATTTAATCATTACTATTTAAAAATATTAATATATTATTTATAATTT
63 ATATTAATAT-TTATTATAATTTAATCATTAATATTTAAAAATATTAATATATTACTTATAAGTT
32239914 AAATGTTATTATGA
127 AAATGTTATTATGA
* * *
32239928 TTATTTATTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTGGTAATTAAAAT
1 TTATTTATTTTTAAATATTAATAATTTATAATTTA-TTAAAATATTAATAATTGATAATTTAAAT
* * * *
32239993 ATTAATATTTATTATAATTTAATCATTAATATTTAAAAATATTAATATTTTGCTTATAGGTTATA
65 ATTAATATTTATTATAATTTAATCATTAATATTTAAAAATATTAATATATTACTTATAAGTTAAA
32240058 TGTTATTATGA
130 TGTTATTATGA
* * *
32240069 TTATTTATTTTGAAATATTAATAATTTATAGTTTATTGAAAATATTAATAATTGATCATTTAAAT
1 TTATTTATTTTTAAATATTAATAATTTATAATTTATT-AAAATATTAATAATTGATAATTTAAAT
*
32240134 ATTAATATTTTATTTATAATTTAATTATTAATATTT
65 ATTAATA-TTTA-TTATAATTTAATCATTAATATTT
32240170 GAAAGTTGTA
Statistics
Matches: 217, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
140 2 0.01
141 136 0.63
142 50 0.23
143 29 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (140 bp):
TTATTTATTTTTAAATATTAATAATTTATAATTTATTAAAATATTAATAATTGATAATTTAAATA
TTAATATTTATTATAATTTAATCATTAATATTTAAAAATATTAATATATTACTTATAAGTTAAAT
GTTATTATGA
Found at i:32239978 original size:27 final size:27
Alignment explanation
Indices: 32239792--32239987 Score: 95
Period size: 27 Copynumber: 7.1 Consensus size: 27
32239782 ATTTTATTTC
*
32239792 ATTT-TTT-AAATATT-ATAATTTATA
1 ATTTATTTAAAATATTAATAATTGATA
* *
32239816 ATTTATGTAAAATATTAATAATTGATT
1 ATTTATTTAAAATATTAATAATTGATA
* * * * *
32239843 ATTTAAATATCAACATGTTATTATAATTTAATC
1 ATTT--AT-TTAAAATATTA--ATAA-TTGATA
32239876 ATTACTATTTAAAAATATTAATATATT-AT-
1 ATT--TATTT-AAAATATTAATA-ATTGATA
* * *
32239905 -TTATAATTT-AAATGTT-ATTA-TGATT
1 ATT-T-ATTTAAAATATTAATAATTGATA
*
32239930 ATTTATTTTTAAATATTAATAATTGATA
1 ATTTA-TTTAAAATATTAATAATTGATA
*
32239958 ATTTATTTAAAATATTAATAATTGGTA
1 ATTTATTTAAAATATTAATAATTGATA
32239985 ATT
1 ATT
32239988 AAAATATTAA
Statistics
Matches: 131, Mismatches: 20, Indels: 39
0.69 0.11 0.21
Matches are distributed among these distances:
23 1 0.01
24 8 0.06
25 8 0.06
26 21 0.16
27 39 0.30
28 15 0.11
29 2 0.02
30 9 0.07
31 5 0.04
32 6 0.05
33 16 0.12
35 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTTATTTAAAATATTAATAATTGATA
Found at i:32240606 original size:14 final size:15
Alignment explanation
Indices: 32240583--32240611 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32240573 TTGAAATAAG
32240583 AAAAGAATAAAAATA
1 AAAAGAATAAAAATA
32240598 AAAAG-ATAAAAATA
1 AAAAGAATAAAAATA
32240612 CAGATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAAGAATAAAAATA
Found at i:32240704 original size:15 final size:14
Alignment explanation
Indices: 32240692--32240731 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
32240682 AATATTAATA
32240692 ATTAATTATTTAAAT
1 ATTAA-TATTTAAAT
32240707 ATTAATATTTTAAAT
1 ATTAATA-TTTAAAT
32240722 ATTAATATTT
1 ATTAATATTT
32240732 TCTTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTAATATTTAAAT
Found at i:32240732 original size:15 final size:15
Alignment explanation
Indices: 32240700--32240732 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
32240690 TAATTAATTA
32240700 TTTAAATATTAATAT
1 TTTAAATATTAATAT
32240715 TTTAAATATTAATAT
1 TTTAAATATTAATAT
32240730 TTT
1 TTT
32240733 CTTATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATATTAATAT
Found at i:32240751 original size:40 final size:41
Alignment explanation
Indices: 32240692--32240822 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 41
32240682 AATATTAATA
*
32240692 ATTAATTATTTAA-ATATTAATATTTTAAATATTAATATTTT
1 ATTAATAATTTAATA-ATTAATATTTTAAATATTAATATTTT
* ***
32240733 CTT-ATAATTTAATAATTAATATTTTAAATCCAAATATTTT
1 ATTAATAATTTAATAATTAATATTTTAAATATTAATATTTT
* * *
32240773 ATTAATAGTTTAAT-ATTATTATGATTAAAATATTAATAATTTT
1 ATTAATAATTTAATAATTAATAT--TTTAAATATTAAT-ATTTT
32240816 AATTAAT
1 -ATTAAT
32240823 TTCCAAATTT
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
40 40 0.56
41 12 0.17
42 9 0.12
43 5 0.07
44 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (41 bp):
ATTAATAATTTAATAATTAATATTTTAAATATTAATATTTT
Found at i:32241114 original size:16 final size:16
Alignment explanation
Indices: 32241089--32241119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32241079 TTATACTTTC
32241089 ATTAAAAATTTAATAT
1 ATTAAAAATTTAATAT
*
32241105 ATTAATAATTTAATA
1 ATTAAAAATTTAATA
32241120 AGGTAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAAAAATTTAATAT
Found at i:32241262 original size:17 final size:18
Alignment explanation
Indices: 32241242--32241281 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
32241232 TTATTTTGAA
*
32241242 TTTTTGTT-TTTTTTTTC
1 TTTTTGTTCTTTTTCTTC
32241259 TTTTT-TTCTTTTTCTTC
1 TTTTTGTTCTTTTTCTTC
32241276 TTTTTG
1 TTTTTG
32241282 ATGTGGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (18 bp):
TTTTTGTTCTTTTTCTTC
Found at i:32241265 original size:14 final size:14
Alignment explanation
Indices: 32241248--32241280 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32241238 TGAATTTTTG
32241248 TTTTTTTTTTCTT-
1 TTTTTTTTTTCTTC
32241261 TTTTTCTTTTTCTTC
1 TTTTT-TTTTTCTTC
32241276 TTTTT
1 TTTTT
32241281 GATGTGGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 8 0.44
15 5 0.28
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTCTTC
Found at i:32241860 original size:13 final size:12
Alignment explanation
Indices: 32241823--32241863 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
32241813 ATATAAATAC
32241823 TTCTTTTTCT-T
1 TTCTTTTTCTCT
32241834 TTCATTTTTC-CT
1 TTC-TTTTTCTCT
32241846 TTCTTTGTTCTCT
1 TTCTTT-TTCTCT
32241859 TTCTT
1 TTCTT
32241864 CTCACACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.23
12 13 0.50
13 7 0.27
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (12 bp):
TTCTTTTTCTCT
Found at i:32242302 original size:16 final size:15
Alignment explanation
Indices: 32242278--32242311 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
32242268 TTATAAATTA
32242278 TAAAAATTAACATTT
1 TAAAAATTAACATTT
*
32242293 TAAAATATTAATATTT
1 TAAAA-ATTAACATTT
32242309 TAA
1 TAA
32242312 TCATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATTAACATTT
Found at i:32242357 original size:16 final size:16
Alignment explanation
Indices: 32242336--32242367 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32242326 AAATTATAAA
32242336 TAAAATATTAATGTTT
1 TAAAATATTAATGTTT
32242352 TAAAATATTAATGTTT
1 TAAAATATTAATGTTT
32242368 GCCTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TAAAATATTAATGTTT
Found at i:32242717 original size:41 final size:39
Alignment explanation
Indices: 32242672--32242832 Score: 109
Period size: 40 Copynumber: 4.0 Consensus size: 39
32242662 TTAAATTTGG
* * *
32242672 AAATTAATTAAAATTATTAATATTTTAATCATAATAGTATT
1 AAATTAAATAAAA-TATTAATA-TTTAATAATATTAGTATT
*
32242713 AAATTATAAATAAAATATTAGTATTTAA-AATATTAGTGATT
1 AAA-T-TAAATAAAATATTAATATTTAATAATATTAGT-ATT
* * *
32242754 AAATTATAATAAAATATTACTAGTTAA-AGATATTAATATTT
1 AAATTA-AATAAAATATTAATATTTAATA-ATATTAGTA-TT
* *
32242795 AAATT--ATTAATTATTAATATTTTAATTAA-ATTA-TATT
1 AAATTAAATAAAATATTAATA-TTTAA-TAATATTAGTATT
32242832 A
1 A
32242833 TCAATATTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
37 3 0.03
38 13 0.13
39 10 0.10
40 29 0.29
41 29 0.29
42 8 0.08
43 8 0.08
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (39 bp):
AAATTAAATAAAATATTAATATTTAATAATATTAGTATT
Found at i:32242781 original size:40 final size:41
Alignment explanation
Indices: 32242706--32242801 Score: 133
Period size: 41 Copynumber: 2.3 Consensus size: 41
32242696 TTAATCATAA
* *
32242706 TAGTATTAAATTATAAATAAAATATTAGTATTTAAA-ATAT
1 TAGTATTAAATTATAAATAAAATATTACTAGTTAAAGATAT
32242746 TAGTGATTAAATTAT-AATAAAATATTACTAGTTAAAGATAT
1 TAGT-ATTAAATTATAAATAAAATATTACTAGTTAAAGATAT
*
32242787 TAATATTTAAATTAT
1 TAGTA-TTAAATTAT
32242802 TAATTATTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
40 24 0.48
41 26 0.52
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (41 bp):
TAGTATTAAATTATAAATAAAATATTACTAGTTAAAGATAT
Found at i:32242796 original size:16 final size:15
Alignment explanation
Indices: 32242763--32242805 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
32242753 TAAATTATAA
*
32242763 TAAAATATTACTAGT
1 TAAAATATTAATAGT
*
32242778 TAAAGATATTAATATT
1 TAAA-ATATTAATAGT
*
32242794 TAAATTATTAAT
1 TAAAATATTAAT
32242806 TATTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (15 bp):
TAAAATATTAATAGT
Found at i:32242804 original size:15 final size:15
Alignment explanation
Indices: 32242682--32242844 Score: 55
Period size: 15 Copynumber: 11.2 Consensus size: 15
32242672 AAATTAATTA
32242682 AAATTATTAATATTT
1 AAATTATTAATATTT
* *
32242697 TAATCA-TAATAGTATT
1 AAATTATTAATA-T-TT
32242713 AAATTA-TAA-A--T
1 AAATTATTAATATTT
* *
32242724 AAAATATTAGTATTT
1 AAATTATTAATATTT
* *
32242739 AAAATATTAGTGA-TT
1 AAATTATTAAT-ATTT
32242754 AAATTA-TAATA---
1 AAATTATTAATATTT
* *
32242765 AAA-TATTACTAGTT
1 AAATTATTAATATTT
*
32242779 AAAGATATTAATATTT
1 AAA-TTATTAATATTT
32242795 AAATTATTAAT-TATT
1 AAATTATTAATAT-TT
*
32242810 AATATT-TTAATTAAATT
1 AA-ATTATTAA-T-ATTT
* *
32242827 ATATTATCAATATTT
1 AAATTATTAATATTT
32242842 AAA
1 AAA
32242845 AGTAAAATAA
Statistics
Matches: 112, Mismatches: 17, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
10 2 0.02
11 13 0.12
12 2 0.02
13 2 0.02
14 12 0.11
15 45 0.40
16 30 0.27
17 6 0.05
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (15 bp):
AAATTATTAATATTT
Found at i:32242809 original size:22 final size:24
Alignment explanation
Indices: 32242784--32242844 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 24
32242774 TAGTTAAAGA
32242784 TATTAATATTTAAATT-ATTA-AT
1 TATTAATATTTAAATTAATTATAT
*
32242806 TATTAATATTTTAATTAAATTATAT
1 TATTAATATTTAAATT-AATTATAT
*
32242831 TATCAATATTTAAA
1 TATTAATATTTAAA
32242845 AGTAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.45
24 4 0.12
25 14 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTAATATTTAAATTAATTATAT
Found at i:32251351 original size:1 final size:1
Alignment explanation
Indices: 32251347--32251443 Score: 194
Period size: 1 Copynumber: 97.0 Consensus size: 1
32251337 TTTAAAAAAG
32251347 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
32251412 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
32251444 ATTATTATTA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 96 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:32257113 original size:21 final size:21
Alignment explanation
Indices: 32257087--32257129 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
32257077 TGTATCCCAA
*
32257087 CTTACAGC-AAACTATTACAAG
1 CTTACAACTAAAC-ATTACAAG
32257108 CTTACAACTAAACATTACAAG
1 CTTACAACTAAACATTACAAG
32257129 C
1 C
32257130 ACTTGAACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (21 bp):
CTTACAACTAAACATTACAAG
Found at i:32266759 original size:2 final size:2
Alignment explanation
Indices: 32266706--32266746 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32266696 NAAAAATCTT
32266706 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32266747 TATGGCTCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:32274156 original size:23 final size:23
Alignment explanation
Indices: 32274130--32274174 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
32274120 TTATCCGCTT
*
32274130 AAACCCAGAACAAGAAACAAAAC
1 AAACCCAGAACAAAAAACAAAAC
* *
32274153 AAACCCAGTACAAAAAATAAAA
1 AAACCCAGAACAAAAAACAAAA
32274175 ACCAGAGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.22, G:0.07, T:0.04
Consensus pattern (23 bp):
AAACCCAGAACAAAAAACAAAAC
Found at i:32276952 original size:115 final size:115
Alignment explanation
Indices: 32276745--32276972 Score: 261
Period size: 115 Copynumber: 2.0 Consensus size: 115
32276735 ATATTTTCAC
* ** *
32276745 ATATTTTCTTACTCTTAATTTGTGATTATTCTTGAACCAAAATAAATGTATAACATTAAAATTAC
1 ATATTTTCTTACTCTTAATTTGTGATTATTCTTGAACCAAAACAAAACTATAACACTAAAATTAC
* *
32276810 ACGCATTTAATGATAATCATAATTATATGATGATCATCATCTTAAACAAA
66 ACACATTTAAAGATAATCATAATTATATGATGATCATCATCTTAAACAAA
* * *
32276860 ATATTTT-TGTACTCTTAATTTGTGATTATTCTTGAATCAAAGCAAAACTA-AGATACTAAAATT
1 ATATTTTCT-TACTCTTAATTTGTGATTATTCTTGAACCAAAACAAAACTATA-ACACTAAAATT
* * * * *
32276923 ACATTAC-TTTAAAGATAAT--TACTAATAT-ATGATCATCGTCTTAAATAAA
64 ACA-CACATTTAAAGATAATCATAATTATATGATGATCATCATCTTAAACAAA
32276972 A
1 A
32276973 CGATAAATTT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
112 20 0.21
113 7 0.07
114 2 0.02
115 66 0.69
116 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (115 bp):
ATATTTTCTTACTCTTAATTTGTGATTATTCTTGAACCAAAACAAAACTATAACACTAAAATTAC
ACACATTTAAAGATAATCATAATTATATGATGATCATCATCTTAAACAAA
Found at i:32295638 original size:3 final size:3
Alignment explanation
Indices: 32295630--32295657 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32295620 GGTACCAAGA
32295630 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
32295658 TATGTAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32300642 original size:21 final size:21
Alignment explanation
Indices: 32300618--32300672 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
32300608 GAATAATGGT
32300618 GGTGGTGGTGGTGGAGGGG-GC
1 GGTGGTGGTGG-GGAGGGGAGC
* * *
32300639 GGTGGAGGTGGGGCGGGGAGT
1 GGTGGTGGTGGGGAGGGGAGC
32300660 GGTGGTGGTGGGG
1 GGTGGTGGTGGGG
32300673 GAATGGGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.05, C:0.04, G:0.73, T:0.18
Consensus pattern (21 bp):
GGTGGTGGTGGGGAGGGGAGC
Found at i:32311296 original size:2 final size:2
Alignment explanation
Indices: 32311289--32311314 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32311279 AAGTAGTAGA
32311289 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
32311315 AATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32312810 original size:21 final size:22
Alignment explanation
Indices: 32312786--32312827 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
32312776 GTTACATGCA
*
32312786 TTATACTTGT-TGGCTGTGTTG
1 TTATACTTGTCTGGCAGTGTTG
*
32312807 TTATTCTTGTCTGGCAGTGTT
1 TTATACTTGTCTGGCAGTGTT
32312828 TGTTTGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.10, C:0.12, G:0.26, T:0.52
Consensus pattern (22 bp):
TTATACTTGTCTGGCAGTGTTG
Found at i:32316188 original size:106 final size:106
Alignment explanation
Indices: 32316077--32316381 Score: 387
Period size: 106 Copynumber: 2.9 Consensus size: 106
32316067 AGTTAAACTC
* *
32316077 AGGATCCCACCTCTCCTTTTTCAAGCAGCTTGAGACTGCTTGTTGAGGAGGTGAAAGCAAATAAA
1 AGGATCCCACCTCCCCTTTTTCAAGCAGCTTGAGACTGCTTGTTGAGTAGGTGAAAGCAAATAAA
* *
32316142 AAATCTCAAAATAGGCCTTCATCACATTCGCTCTACTTCGT
66 AAATCTCAAAATAGGCCTTCATCACATTCGCTCTACTGCAT
* * * * * * *
32316183 GGGATCCCGCCTCCCCTTTTTCAAGCAACCTGAGACTGCTTGTTGAGTAGGTGAAAGCAAGTCAG
1 AGGATCCCACCTCCCCTTTTTCAAGCAGCTTGAGACTGCTTGTTGAGTAGGTGAAAGCAAATAAA
* *
32316248 AAATCTCAAAATAGGCCCTCATCACATTTGCTCTACTGCAT
66 AAATCTCAAAATAGGCCTTCATCACATTCGCTCTACTGCAT
* * * * * *
32316289 AGGATCCTACCTCCCCTTTTCCAAG-TGACTTGAGACTGCTTGATGAGTAGGTGAAAGCGAATGA
1 AGGATCCCACCTCCCCTTTTTCAAGCAG-CTTGAGACTGCTTGTTGAGTAGGTGAAAGCAAATAA
* ** *
32316353 AAACTCTTGAAATAGGTCTTCATCACATT
65 AAAATCTCAAAATAGGCCTTCATCACATT
32316382 TGCTTTAACA
Statistics
Matches: 168, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
106 168 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (106 bp):
AGGATCCCACCTCCCCTTTTTCAAGCAGCTTGAGACTGCTTGTTGAGTAGGTGAAAGCAAATAAA
AAATCTCAAAATAGGCCTTCATCACATTCGCTCTACTGCAT
Found at i:32320570 original size:4 final size:4
Alignment explanation
Indices: 32320561--32320587 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32320551 TGATTTTAAT
32320561 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
32320588 CAATTGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:32327096 original size:3 final size:3
Alignment explanation
Indices: 32327088--32327120 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32327078 TATGATAAAA
32327088 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32327121 TAGTTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32327221 original size:23 final size:23
Alignment explanation
Indices: 32327164--32327226 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
32327154 AAATAATAGG
* *
32327164 TAAATGATACAAATATTTTTTAT
1 TAAAAGATAAAAATATTTTTTAT
*
32327187 TAAAA-TTAAAAA-ATTTATTTTAT
1 TAAAAGATAAAAATA-TT-TTTTAT
32327210 TAAAAGATAAAAATATT
1 TAAAAGATAAAAATATT
32327227 CTAAACAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 1 0.03
22 7 0.22
23 15 0.47
24 8 0.25
25 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
TAAAAGATAAAAATATTTTTTAT
Found at i:32327350 original size:46 final size:45
Alignment explanation
Indices: 32327292--32327406 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
32327282 ATACAAACAT
* ** *
32327292 ATTTTTATTATAATTTAATACTATTTTGTATTAAAAAATAATTAA
1 ATTTTTATTATAATTTAATAATATTTAATATTAAAAAATAAATAA
* *
32327337 ACTTTTTATTATAATTAAATAATATTTAATATTAAAAAATAAATAT
1 A-TTTTTATTATAATTTAATAATATTTAATATTAAAAAATAAATAA
32327383 ATTTTTCATTA-AATTTAAATAATA
1 ATTTTT-ATTATAATTT-AATAATA
32327407 CTAAATAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
45 10 0.17
46 50 0.83
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (45 bp):
ATTTTTATTATAATTTAATAATATTTAATATTAAAAAATAAATAA
Found at i:32327393 original size:23 final size:22
Alignment explanation
Indices: 32327262--32327395 Score: 74
Period size: 23 Copynumber: 5.9 Consensus size: 22
32327252 TTACTATAAT
* * *
32327262 TAAATAATATTTTCATCAAAATA
1 TAAAT-ATATTTTTATTAAAAAA
* * * *
32327285 CAAACATATTTTTATT-ATAAT
1 TAAATATATTTTTATTAAAAAA
*
32327306 TTAATACTATTTTGTATTAAAAAA
1 TAAATA-TATTTT-TATTAAAAAA
* * * *
32327330 TAATTAAACTTTTTATT-ATAAT
1 TAAATATA-TTTTTATTAAAAAA
*
32327352 TAAATAATATTTAATATTAAAAAA
1 TAAAT-ATATTT-TTATTAAAAAA
32327376 TAAATATATTTTTCATTAAA
1 TAAATATATTTTT-ATTAAA
32327396 TTTAAATAAT
Statistics
Matches: 80, Mismatches: 23, Indels: 16
0.67 0.19 0.13
Matches are distributed among these distances:
21 5 0.06
22 26 0.32
23 30 0.38
24 19 0.24
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.46
Consensus pattern (22 bp):
TAAATATATTTTTATTAAAAAA
Found at i:32327446 original size:31 final size:32
Alignment explanation
Indices: 32327376--32327450 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
32327366 TATTAAAAAA
32327376 TAAAT-ATATTTTTCATTAAATTTAAATAATAC
1 TAAATAATATTTTTCATTAAATTT-AATAATAC
* * * *
32327408 TAAATAATATTTTTTATTATATTT-ATTATAT
1 TAAATAATATTTTTCATTAAATTTAATAATAC
32327439 TAAATAATATTT
1 TAAATAATATTT
32327451 AGATATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 17 0.45
32 5 0.13
33 16 0.42
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (32 bp):
TAAATAATATTTTTCATTAAATTTAATAATAC
Found at i:32331623 original size:2 final size:2
Alignment explanation
Indices: 32331616--32331694 Score: 149
Period size: 2 Copynumber: 39.0 Consensus size: 2
32331606 ACAATGGATA
32331616 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NAT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
32331659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32331695 TATGATCATT
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 74 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32333731 original size:40 final size:38
Alignment explanation
Indices: 32333672--32333783 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 38
32333662 TTATATAATA
* *
32333672 TCATCTCTTAAATATATTTTTAATCTTATATATTTTATTT
1 TCATTTCTTTAATATATTTTT-AT-TTATATATTTTATTT
** *
32333712 TCATTTC-TT-AT-TA-TAAT-TTTATATATGTTATTT
1 TCATTTCTTTAATATATTTTTATTTATATATTTTATTT
32333745 TCATTTCTTTAATATATTTTTTATATTATATATTTTATT
1 TCATTTCTTTAATATA-TTTTTAT-TTATATATTTTATT
32333784 AATTTCTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
33 21 0.37
34 3 0.05
35 2 0.04
36 4 0.07
37 2 0.04
38 4 0.07
39 2 0.04
40 19 0.33
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (38 bp):
TCATTTCTTTAATATATTTTTATTTATATATTTTATTT
Found at i:32333779 original size:35 final size:32
Alignment explanation
Indices: 32333700--32333780 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 32
32333690 TTTAATCTTA
*
32333700 TATATT-TTATTTTCATTTCTTATTATAATTT
1 TATATTATTATTTTCATTTCTTAATATAATTT
* *
32333731 TATATATGTTATTTTCATTTCTTTAATATATTTTT
1 TATAT-TATTATTTTCATTTC-TTAATATA-ATTT
32333766 TATATTATATATTTT
1 TATATTAT-TATTTT
32333781 ATTAATTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 5 0.12
32 1 0.02
33 13 0.31
34 9 0.21
35 14 0.33
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (32 bp):
TATATTATTATTTTCATTTCTTAATATAATTT
Found at i:32333829 original size:15 final size:13
Alignment explanation
Indices: 32333809--32333858 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 13
32333799 TATTATATAA
32333809 ATTTTAATTTCTTAT
1 ATTTTAATTT-TT-T
32333824 ATTTT-A-TTTTT
1 ATTTTAATTTTTT
32333835 ATTTTAATATTTTTT
1 ATTTT-A-ATTTTTT
32333850 ATTTTAATT
1 ATTTTAATT
32333859 ATAACATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.19
12 2 0.06
13 5 0.16
14 3 0.10
15 15 0.48
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:32337583 original size:2 final size:2
Alignment explanation
Indices: 32337578--32337630 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
32337568 CAGATCATAT
32337578 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32337620 AG AG AG AG AG A
1 AG AG AG AG AG A
32337631 AGAAGAAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32337636 original size:3 final size:3
Alignment explanation
Indices: 32337628--32337653 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32337618 AGAGAGAGAG
32337628 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
32337654 NNNNGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:32340152 original size:24 final size:24
Alignment explanation
Indices: 32340117--32340162 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
32340107 GCAAGTCTTT
32340117 TTGTTTCTTTTGTATG-CATATTGC
1 TTGTTTCTTTTGTA-GACATATTGC
32340141 TTGTTT-TATTTGTAGACATATT
1 TTGTTTCT-TTTGTAGACATATT
32340163 AGTGTGCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.09, G:0.15, T:0.59
Consensus pattern (24 bp):
TTGTTTCTTTTGTAGACATATTGC
Found at i:32353887 original size:44 final size:47
Alignment explanation
Indices: 32353837--32353938 Score: 138
Period size: 52 Copynumber: 2.1 Consensus size: 47
32353827 TGGTGTAAAG
32353837 CTTATTGTCATGCGG-TT-T-TTTTTTTTGGTAAAATACTCTTATTT
1 CTTATTGTCATGCGGTTTATATTTTTTTTGGTAAAATACTCTTATTT
32353881 CTTATTGTCATGCGGTTTCTTAAGTATTTTTTTTGGTAAAATACTCTTATTT
1 CTTATTGTCATGCGG--T-TT-A-TATTTTTTTTGGTAAAATACTCTTATTT
32353933 CTTATT
1 CTTATT
32353939 TTTTTTGGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
44 15 0.30
48 2 0.04
51 1 0.02
52 32 0.64
ACGTcount: A:0.20, C:0.12, G:0.13, T:0.56
Consensus pattern (47 bp):
CTTATTGTCATGCGGTTTATATTTTTTTTGGTAAAATACTCTTATTT
Found at i:32356944 original size:22 final size:22
Alignment explanation
Indices: 32356919--32356965 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
32356909 TTAAATGTTG
32356919 ATGTATTTTCAAAACAAAAATT
1 ATGTATTTTCAAAACAAAAATT
* * **
32356941 ATGTCTTTTCATATGAAAAATT
1 ATGTATTTTCAAAACAAAAATT
32356963 ATG
1 ATG
32356966 ACTATTGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (22 bp):
ATGTATTTTCAAAACAAAAATT
Found at i:32362092 original size:13 final size:13
Alignment explanation
Indices: 32362067--32362102 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
32362057 TATATATGTG
*
32362067 TTATAAAATATAA
1 TTATAAAAAATAA
*
32362080 TTTTAAAAAATAA
1 TTATAAAAAATAA
32362093 TTATAAAAAA
1 TTATAAAAAA
32362103 AAGTATTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTATAAAAAATAA
Found at i:32364381 original size:43 final size:44
Alignment explanation
Indices: 32364317--32364399 Score: 150
Period size: 43 Copynumber: 1.9 Consensus size: 44
32364307 CTTCAATATT
*
32364317 TTTTTTCTCTTTTAGCTTTCAATGATGTTTGATAAAGTTCCATA
1 TTTTTTCTCTTTTAGCATTCAATGATGTTTGATAAAGTTCCATA
32364361 TTTTTT-TCTTTTAGCATTCAATGATGTTTGATAAAGTTC
1 TTTTTTCTCTTTTAGCATTCAATGATGTTTGATAAAGTTC
32364400 AACAAGAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
43 32 0.84
44 6 0.16
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (44 bp):
TTTTTTCTCTTTTAGCATTCAATGATGTTTGATAAAGTTCCATA
Found at i:32364574 original size:28 final size:28
Alignment explanation
Indices: 32364529--32364644 Score: 137
Period size: 28 Copynumber: 4.1 Consensus size: 28
32364519 ATCTCTTCAC
* * *
32364529 TATTCATCCACTTCTAGTGGATTAAAAG
1 TATTCATTCATTTTTAGTGGATTAAAAG
32364557 TATTCATTCATTTTTAGTGGATTAAAAG
1 TATTCATTCATTTTTAGTGGATTAAAAG
* *
32364585 TATTCA-TCATTTTCTGGTGGGTTAAAAG
1 TATTCATTCATTTT-TAGTGGATTAAAAG
*
32364613 TATTCATTCACTTCTGT-GTGGATTAAAAG
1 TATTCATTCA-TT-TTTAGTGGATTAAAAG
32364642 TAT
1 TAT
32364645 ACATCTACTT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
27 7 0.09
28 49 0.64
29 17 0.22
30 3 0.04
31 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.42
Consensus pattern (28 bp):
TATTCATTCATTTTTAGTGGATTAAAAG
Found at i:32364662 original size:57 final size:57
Alignment explanation
Indices: 32364537--32364688 Score: 170
Period size: 56 Copynumber: 2.7 Consensus size: 57
32364527 ACTATTCATC
* * *
32364537 CACTTCTAGTGGATTAAAAGTATTCATTCA-TT-TTTAGTGGATTAAAAGTATTCAT
1 CACTTCTAGTGGGTTAAAAGTATTCATTCACTTCTGTAGTGGATTAAAAGTATACAT
* *
32364592 CATTTTCTGGTGGGTTAAAAGTATTCATTCACTTCTGT-GTGGATTAAAAGTATACAT
1 CA-CTTCTAGTGGGTTAAAAGTATTCATTCACTTCTGTAGTGGATTAAAAGTATACAT
* *
32364649 CTACTTCTTGTGGG-T-AAAGTTATACATTCACTTCTAGTAG
1 C-ACTTCTAGTGGGTTAAAAG-TATTCATTCACTTCT-GTAG
32364689 GTAAAGTTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
55 6 0.07
56 40 0.49
57 32 0.39
58 4 0.05
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (57 bp):
CACTTCTAGTGGGTTAAAAGTATTCATTCACTTCTGTAGTGGATTAAAAGTATACAT
Found at i:32364673 original size:27 final size:27
Alignment explanation
Indices: 32364638--32364698 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
32364628 GTGTGGATTA
* *
32364638 AAAG-TATACA-TCTACTTCTTGTGGGT
1 AAAGTTATACATTC-ACTTCTAGTAGGT
32364664 AAAGTTATACATTCACTTCTAGTAGGT
1 AAAGTTATACATTCACTTCTAGTAGGT
32364691 AAAGTTAT
1 AAAGTTAT
32364699 TATTGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 4 0.13
27 25 0.81
28 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (27 bp):
AAAGTTATACATTCACTTCTAGTAGGT
Found at i:32365075 original size:31 final size:31
Alignment explanation
Indices: 32365040--32365105 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
32365030 TTAGAAATCA
* *
32365040 AAGAATAACCATTGAAATCATTTGAACCTTG
1 AAGAATAACCATCGAAATCATTTGAACCTCG
* *
32365071 AAGAATAATCATCGAAATCTTTTGAACCTCG
1 AAGAATAACCATCGAAATCATTTGAACCTCG
32365102 AAGA
1 AAGA
32365106 TGATGAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (31 bp):
AAGAATAACCATCGAAATCATTTGAACCTCG
Found at i:32365505 original size:19 final size:20
Alignment explanation
Indices: 32365478--32365523 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
32365468 AGGAGACAAG
*
32365478 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
32365497 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
32365516 ATAATATT
1 ATAATATT
32365524 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:32365963 original size:20 final size:20
Alignment explanation
Indices: 32365918--32365955 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32365908 TTTTGGCCTC
32365918 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
*
32365938 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTAGAGTA
32365956 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:32366187 original size:23 final size:24
Alignment explanation
Indices: 32366153--32366198 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
32366143 TAAGAGCCCC
32366153 GATTTGCATTTTTCTGT-AGTGTT
1 GATTTGCATTTTTCTGTAAGTGTT
*
32366176 GATTTGCTTTTTTCTGTAAGTGT
1 GATTTGCATTTTTCTGTAAGTGT
32366199 GTTGATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.13, C:0.09, G:0.22, T:0.57
Consensus pattern (24 bp):
GATTTGCATTTTTCTGTAAGTGTT
Found at i:32366482 original size:29 final size:30
Alignment explanation
Indices: 32366415--32366482 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
32366405 CTCATCTGTT
*
32366415 AAATCCAAGCAAAGAATTTTTACTAAAAAA
1 AAATCCAAGCAAAGAACTTTTACTAAAAAA
*
32366445 AAATCCAAGCAAAGAACTTTTA-TTAAAAA
1 AAATCCAAGCAAAGAACTTTTACTAAAAAA
32366474 AAATCCAAG
1 AAATCCAAG
32366483 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (30 bp):
AAATCCAAGCAAAGAACTTTTACTAAAAAA
Found at i:32367143 original size:46 final size:46
Alignment explanation
Indices: 32367091--32367182 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
32367081 TTAGGTAGAG
32367091 TCATCTCCATCCTTCAAAAATCTCATTACTCACAAAAGAGGAAGAA
1 TCATCTCCATCCTTCAAAAATCTCATTACTCACAAAAGAGGAAGAA
32367137 TCATCTCCATCCTTCAAAAATCTCATTACTCACAAAAGAGGAAGAA
1 TCATCTCCATCCTTCAAAAATCTCATTACTCACAAAAGAGGAAGAA
32367183 ATATCATGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (46 bp):
TCATCTCCATCCTTCAAAAATCTCATTACTCACAAAAGAGGAAGAA
Found at i:32367671 original size:70 final size:71
Alignment explanation
Indices: 32367581--32367721 Score: 248
Period size: 70 Copynumber: 2.0 Consensus size: 71
32367571 TTTTGTCCAT
* *
32367581 TTTTATCTTTTTTTTTATATTTCTTCACTACTCATCCATTTCTAGTCATTAAATGTATCCATCCA
1 TTTTATCTTTTTTCTTATATTTCTTCACTACTCATCCATTTCTAGTCATTAAATATATCCATCCA
32367646 CCTATG
66 CCTATG
*
32367652 TTTTATC-TTTTTCTTATATTTCTTCACTACTCATTCATTTCTAGTCATTAAATATATCCATCCA
1 TTTTATCTTTTTTCTTATATTTCTTCACTACTCATCCATTTCTAGTCATTAAATATATCCATCCA
32367716 CCTATG
66 CCTATG
32367722 GTAAGTAAAG
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 60 0.90
71 7 0.10
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (71 bp):
TTTTATCTTTTTTCTTATATTTCTTCACTACTCATCCATTTCTAGTCATTAAATATATCCATCCA
CCTATG
Found at i:32367798 original size:27 final size:26
Alignment explanation
Indices: 32367706--32367855 Score: 104
Period size: 27 Copynumber: 5.4 Consensus size: 26
32367696 TCATTAAATA
* *
32367706 TATCCATCCACCTATGGTAAGTAAAGG
1 TATCCATCCACCTTTGGTAGGTAAA-G
* *
32367733 TATCCATCCACCTTTTTGCTCGGTAAAAG
1 TATCCATCCACC--TTTGGTAGGT-AAAG
* * *
32367762 TATTCGTCCACCTTTGGTGGGTATAAG
1 TATCCATCCACCTTTGGTAGGTA-AAG
* *
32367789 TATCCATCCATCTTTAGTAGGTAAAG
1 TATCCATCCACCTTTGGTAGGTAAAG
* *
32367815 TTATCTATCTACCTCTCTGGT-GGCTAAAAG
1 -TATCCATCCACCT-T-TGGTAGG-T-AAAG
32367845 TATCCATCCAC
1 TATCCATCCAC
32367856 TGATGGGTAA
Statistics
Matches: 95, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
26 4 0.04
27 51 0.54
28 3 0.03
29 30 0.32
30 7 0.07
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (26 bp):
TATCCATCCACCTTTGGTAGGTAAAG
Found at i:32367883 original size:17 final size:17
Alignment explanation
Indices: 32367861--32367894 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32367851 TCCACTGATG
32367861 GGTAAAAATATCCATCC
1 GGTAAAAATATCCATCC
* *
32367878 GGTAAAAGTATTCATCC
1 GGTAAAAATATCCATCC
32367895 ACTTTTGGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (17 bp):
GGTAAAAATATCCATCC
Found at i:32367920 original size:27 final size:26
Alignment explanation
Indices: 32367882--32368171 Score: 180
Period size: 27 Copynumber: 10.7 Consensus size: 26
32367872 CCATCCGGTA
* *
32367882 AAAGTATTCATCCACTTTTGGTGGGT
1 AAAGTATCCATCCACTTCTGGTGGGT
* *
32367908 ATAAGTATCCATCCA-TCTCTAGTAGGT
1 A-AAGTATCCATCCACT-TCTGGTGGGT
* *
32367935 AAAGTTATCTATCTACCTCTCTGGTGGGT
1 AAAG-TATCCATCCA-CT-TCTGGTGGGT
*
32367964 AAAAGTATCCATCCA---CTGATGGGT
1 -AAAGTATCCATCCACTTCTGGTGGGT
* *
32367988 AAAAGTATCCGTCCA---CTGATGGGT
1 -AAAGTATCCATCCACTTCTGGTGGGT
* * * *
32368012 AAAAATATCCATTCACCTTCTGATGAGT
1 -AAAGTATCCATCCA-CTTCTGGTGGGT
* * *
32368040 AAAGATATCCATTCACTTCTAGTGAGT
1 AAAG-TATCCATCCACTTCTGGTGGGT
* *
32368067 AAAGGTATCCATCCACCTTTCTGATGAGT
1 AAA-GTATCCATCCA-C-TTCTGGTGGGT
* *
32368096 AAAGATATCCATTCACTTCTAGTGGGT
1 AAAG-TATCCATCCACTTCTGGTGGGT
*
32368123 AAAGGTATCCATCCATCTTTTTGGTGGGT
1 AAA-GTATCCATCCA-C-TTCTGGTGGGT
32368152 AAAAGTATCCATCCACTTCT
1 -AAAGTATCCATCCACTTCT
32368172 TTAGTGGATA
Statistics
Matches: 215, Mismatches: 30, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
24 43 0.20
26 5 0.02
27 76 0.35
28 25 0.12
29 59 0.27
30 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (26 bp):
AAAGTATCCATCCACTTCTGGTGGGT
Found at i:32367972 original size:29 final size:27
Alignment explanation
Indices: 32367878--32368218 Score: 148
Period size: 29 Copynumber: 12.4 Consensus size: 27
32367868 ATATCCATCC
* *
32367878 GGTAAAAGTATTCATCCA-CTTTTGGTG
1 GGTAAAAGTATCCATCCATC-TCTGGTG
* * *
32367905 GGTATAAGTATCCATCCATCTCTAGTA
1 GGTAAAAGTATCCATCCATCTCTGGTG
* *
32367932 GGT-AAAGTTATCTATCTACCTCTCTGGTG
1 GGTAAAAG-TATCCATC--CATCTCTGGTG
*
32367961 GGTAAAAGTATCCATCCA---CTGATG
1 GGTAAAAGTATCCATCCATCTCTGGTG
* *
32367985 GGTAAAAGTATCCGTCCA---CTGATG
1 GGTAAAAGTATCCATCCATCTCTGGTG
* * * *
32368009 GGTAAAAATATCCATTCACCTTCTGATG
1 GGTAAAAGTATCCATCCATC-TCTGGTG
* * *
32368037 AGT-AAAGATATCCATTCA-CTTCTAGTG
1 GGTAAAAG-TATCCATCCATC-TCTGGTG
* * * *
32368064 AGTAAAGGTATCCATCCACCTTTCTGATG
1 GGTAAAAGTATCCATCCA--TCTCTGGTG
* * *
32368093 AGT-AAAGATATCCATTCA-CTTCTAGTG
1 GGTAAAAG-TATCCATCCATC-TCTGGTG
* *
32368120 GGTAAAGGTATCCATCCATCTTTTTGGTG
1 GGTAAAAGTATCCATCCATC--TCTGGTG
* *
32368149 GGTAAAAGTATCCATCCACTTCTTTAGTG
1 GGTAAAAGTATCCATCCA--TCTCTGGTG
* * * **
32368178 GATAAATGTATTCATCCACCTCTCTTATG
1 GGTAAAAGTATCCATCCA--TCTCTGGTG
32368207 GGTAAAAGTATC
1 GGTAAAAGTATC
32368219 TATAAAGGTA
Statistics
Matches: 245, Mismatches: 48, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
24 43 0.18
26 3 0.01
27 69 0.28
28 29 0.12
29 95 0.39
30 4 0.02
31 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (27 bp):
GGTAAAAGTATCCATCCATCTCTGGTG
Found at i:32367973 original size:124 final size:124
Alignment explanation
Indices: 32367753--32367997 Score: 445
Period size: 124 Copynumber: 2.0 Consensus size: 124
32367743 CCTTTTTGCT
* *
32367753 CGGTAAAAGTATTCGTCCACCTTTGGTGGGTATAAGTATCCATCCATCTTTAGTAGGTAAAGTTA
1 CGGTAAAAGTATTCATCCACCTTTGGTGGGTATAAGTATCCATCCATCTCTAGTAGGTAAAGTTA
32367818 TCTATCTACCTCTCTGGTGGCTAAAAGTATCCATCCACTGATGGGTAAAAATATCCATC
66 TCTATCTACCTCTCTGGTGGCTAAAAGTATCCATCCACTGATGGGTAAAAATATCCATC
*
32367877 CGGTAAAAGTATTCATCCACTTTTGGTGGGTATAAGTATCCATCCATCTCTAGTAGGTAAAGTTA
1 CGGTAAAAGTATTCATCCACCTTTGGTGGGTATAAGTATCCATCCATCTCTAGTAGGTAAAGTTA
* *
32367942 TCTATCTACCTCTCTGGTGGGTAAAAGTATCCATCCACTGATGGGTAAAAGTATCC
66 TCTATCTACCTCTCTGGTGGCTAAAAGTATCCATCCACTGATGGGTAAAAATATCC
32367998 GTCCACTGAT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 116 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (124 bp):
CGGTAAAAGTATTCATCCACCTTTGGTGGGTATAAGTATCCATCCATCTCTAGTAGGTAAAGTTA
TCTATCTACCTCTCTGGTGGCTAAAAGTATCCATCCACTGATGGGTAAAAATATCCATC
Found at i:32367986 original size:24 final size:24
Alignment explanation
Indices: 32367959--32368023 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
32367949 ACCTCTCTGG
32367959 TGGGTAAAAGTATCCATCCACTGA
1 TGGGTAAAAGTATCCATCCACTGA
*
32367983 TGGGTAAAAGTATCCGTCCACTGA
1 TGGGTAAAAGTATCCATCCACTGA
*
32368007 TGGGTAAAAATATCCAT
1 TGGGTAAAAGTATCCAT
32368024 TCACCTTCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (24 bp):
TGGGTAAAAGTATCCATCCACTGA
Found at i:32368102 original size:56 final size:55
Alignment explanation
Indices: 32368017--32368212 Score: 225
Period size: 56 Copynumber: 3.5 Consensus size: 55
32368007 TGGGTAAAAA
*
32368017 TATCCATTCACC-TTCTGATGAGTAAAGATATCCATTCACTTCTAGTGAGTAAAGG
1 TATCCATCCACCTTTCTGATGAGTAAAGATATCCATTCACTTCTAGTG-GTAAAGG
32368072 TATCCATCCACCTTTCTGATGAGTAAAGATATCCATTCACTTCTAGTGGGTAAAGG
1 TATCCATCCACCTTTCTGATGAGTAAAGATATCCATTCACTTCTAGT-GGTAAAGG
* * * * * *
32368128 TATCCATCCATCTTTTTGGTGGGTAAA-AGTATCCATCCACTTCTTTAGTGGATAAATG
1 TATCCATCCACCTTTCTGATGAGTAAAGA-TATCCATTCACTTC--TAGTGG-TAAAGG
* * * *
32368186 TATTCATCCACCTCTCTTATGGGTAAA
1 TATCCATCCACCTTTCTGATGAGTAAA
32368213 AGTATCTATA
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
55 12 0.10
56 77 0.63
57 3 0.02
58 30 0.25
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (55 bp):
TATCCATCCACCTTTCTGATGAGTAAAGATATCCATTCACTTCTAGTGGTAAAGG
Found at i:32368873 original size:34 final size:34
Alignment explanation
Indices: 32368830--32368901 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
32368820 TGAAGTCTGG
32368830 AGATAATGAAAACTAAATAAAACCAAAACTTAAA
1 AGATAATGAAAACTAAATAAAACCAAAACTTAAA
* * * *
32368864 AGATGATGAAAACTAAATAATACTAAAACTTAAG
1 AGATAATGAAAACTAAATAAAACCAAAACTTAAA
32368898 AGAT
1 AGAT
32368902 TAGAGAATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (34 bp):
AGATAATGAAAACTAAATAAAACCAAAACTTAAA
Found at i:32375031 original size:37 final size:34
Alignment explanation
Indices: 32374988--32375063 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
32374978 TTTAGAATTC
32374988 TAAAAATAATAGA-AACTAAAATCAGATGATTATAT
1 TAAAAA-AATA-ATAACTAAAATCAGATGATTATAT
* *
32375023 TAAAAAAATCATAACTCAAATCAGATGATTATAT
1 TAAAAAAATAATAACTAAAATCAGATGATTATAT
32375057 TAAAAAA
1 TAAAAAA
32375064 TCATAATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 1 0.03
34 31 0.82
35 6 0.16
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAAAAAATAATAACTAAAATCAGATGATTATAT
Found at i:32375067 original size:33 final size:34
Alignment explanation
Indices: 32375001--32375069 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
32374991 AAATAATAGA
32375001 AACTAAAATCAGATGATTATATTAAAAAAATCAT
1 AACTAAAATCAGATGATTATATTAAAAAAATCAT
*
32375035 AACTCAAATCAGATGATTATATT-AAAAAATCAT
1 AACTAAAATCAGATGATTATATTAAAAAAATCAT
32375068 AA
1 AA
32375070 TTCACACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 12 0.35
34 22 0.65
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (34 bp):
AACTAAAATCAGATGATTATATTAAAAAAATCAT
Found at i:32375406 original size:60 final size:60
Alignment explanation
Indices: 32375309--32375427 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
32375299 TAACCTGAAC
* * *
32375309 GACCGAATGAGGCGCAGATTGGGAAGGTGCAGGTGCGGCGGCAAAGATGAAAGAGCAAAT
1 GACCGAATGAGGCACAGATTGGGAAGGTGCAGATGCGGCGGCAAAGATGAAACAGCAAAT
* * * *
32375369 GACCGAATGAGGTACGGGTTGGGCAA-GTGCAGATGCGGCGGCGAAGATGAAACAGCAAA
1 GACCGAATGAGGCACAGATTGGG-AAGGTGCAGATGCGGCGGCAAAGATGAAACAGCAAA
32375428 GAGAGACTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 49 0.96
61 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.39, T:0.12
Consensus pattern (60 bp):
GACCGAATGAGGCACAGATTGGGAAGGTGCAGATGCGGCGGCAAAGATGAAACAGCAAAT
Found at i:32381392 original size:32 final size:33
Alignment explanation
Indices: 32381332--32381401 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
32381322 AATGATGGCG
* * * *
32381332 AAAAATATTTTTTACACGATTATTCAAACGATA
1 AAAAATATTTTTTACACAATTATCCAAACAACA
32381365 AAAAATA-TTTTTA-ACAATTTATCCAAACAACA
1 AAAAATATTTTTTACACAA-TTATCCAAACAACA
32381397 AAAAA
1 AAAAA
32381402 AACATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.09
32 22 0.69
33 7 0.22
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (33 bp):
AAAAATATTTTTTACACAATTATCCAAACAACA
Found at i:32391542 original size:5 final size:5
Alignment explanation
Indices: 32391532--32391556 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32391522 TTTTCAGCAG
32391532 CCTGC CCTGC CCTGC CCTGC CCTGC
1 CCTGC CCTGC CCTGC CCTGC CCTGC
32391557 AGTAAACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.20, T:0.20
Consensus pattern (5 bp):
CCTGC
Found at i:32393282 original size:44 final size:44
Alignment explanation
Indices: 32393180--32393385 Score: 218
Period size: 44 Copynumber: 4.7 Consensus size: 44
32393170 TCTAAATTCA
* * * **
32393180 AAACTCATCATTAAACTTGATAATTTTAT-TACGACAC-AGATTT
1 AAACTCATCACTAAATTTGATAATTTTGTATATAACACGA-ATTT
* * * * * **
32393223 AAACTTATTATTAAATTTGATAATTTTGTTTGTAACACGGGTTT
1 AAACTCATCACTAAATTTGATAATTTTGTATATAACACGAATTT
*
32393267 AAACTCATCACTAAATTTGATAATTTTGTATATAACACGAGTTT
1 AAACTCATCACTAAATTTGATAATTTTGTATATAACACGAATTT
* * * *
32393311 AAATTCATCACTAAATTTGATAATTTTGTATACAATATGAATTT
1 AAACTCATCACTAAATTTGATAATTTTGTATATAACACGAATTT
* *
32393355 AAACTCATCACTAAACTTGACAATTTTGTAT
1 AAACTCATCACTAAATTTGATAATTTTGTAT
32393386 TTGATTCGGC
Statistics
Matches: 138, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
43 25 0.18
44 113 0.82
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (44 bp):
AAACTCATCACTAAATTTGATAATTTTGTATATAACACGAATTT
Found at i:32396910 original size:19 final size:20
Alignment explanation
Indices: 32396876--32396913 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
32396866 ATTTCAATCT
32396876 TTAAATAAACATATATATAA
1 TTAAATAAACATATATATAA
*
32396896 TTAAATCAA-ATATATATA
1 TTAAATAAACATATATATA
32396914 CCCATGCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAAATAAACATATATATAA
Found at i:32402294 original size:16 final size:16
Alignment explanation
Indices: 32402273--32402306 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
32402263 ATTACCTTAA
32402273 TAAATACCTTAATATT
1 TAAATACCTTAATATT
32402289 TAAATACCTTAATATT
1 TAAATACCTTAATATT
32402305 TA
1 TA
32402307 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATACCTTAATATT
Found at i:32404704 original size:29 final size:26
Alignment explanation
Indices: 32404668--32404746 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 26
32404658 AGTAAAAATA
*
32404668 AAAAATTTAATATTTTAAAAAATAAAAAC
1 AAAAATTTAAAATTTT--AAAAT-AAAAC
32404697 AAAAATTTAAAATTTTAAAATAAAAC
1 AAAAATTTAAAATTTTAAAATAAAAC
*
32404723 AAAAAATATATAAATTTTTAAAAT
1 -AAAAAT-T-TAAAATTTTAAAAT
32404747 TTTGGAGGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.11
27 11 0.24
28 1 0.02
29 28 0.62
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAATTTAAAATTTTAAAATAAAAC
Found at i:32406831 original size:15 final size:14
Alignment explanation
Indices: 32406807--32406870 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 14
32406797 TCAAAATCAC
32406807 AAAT-AAAAATGATT
1 AAATAAAAAAT-ATT
32406821 AAATAAAAAAT-TT
1 AAATAAAAAATATT
*
32406834 AAAGTTAAAAATATT
1 AAA-TAAAAAATATT
*
32406849 AAA-AATAAAATAAAT
1 AAATAA-AAAAT-ATT
32406864 AAATAAA
1 AAATAAA
32406871 CTAAACTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 6 0.15
14 16 0.39
15 17 0.41
16 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAATAAAAAATATT
Found at i:32408624 original size:6 final size:6
Alignment explanation
Indices: 32408614--32408644 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
32408604 ACTTGGTCAC
*
32408614 TCCCCC TCCCCA TCCCCA TCCCCA TCCCCA T
1 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA T
32408645 GTACACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.13, C:0.68, G:0.00, T:0.19
Consensus pattern (6 bp):
TCCCCA
Found at i:32416707 original size:28 final size:28
Alignment explanation
Indices: 32416667--32416730 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
32416657 TTAAATGGCT
32416667 TGTTTCCTTAACATCCAAGTCTCTTGTC
1 TGTTTCCTTAACATCCAAGTCTCTTGTC
32416695 TGTTTCCTTAACATCCAAGTCTCTTGTC
1 TGTTTCCTTAACATCCAAGTCTCTTGTC
32416723 TGTTTCCT
1 TGTTTCCT
32416731 ATATTTTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.16, C:0.28, G:0.11, T:0.45
Consensus pattern (28 bp):
TGTTTCCTTAACATCCAAGTCTCTTGTC
Found at i:32445625 original size:129 final size:129
Alignment explanation
Indices: 32445394--32445654 Score: 423
Period size: 129 Copynumber: 2.0 Consensus size: 129
32445384 GTGACCCGAA
*
32445394 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCGAAGGTAAGT
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCGAAGGTAAAT
* *
32445459 ATATAATTGGGTTACCATACCCCTCTCATAGGCAGTCCACGGAAACCCCCACCACTGCAGTGAC
66 ATATAATTGGGTTACCATACCCCTCTCATAGGCAGTCCACGAAAACCCCCACCACTACAGTGAC
* * * * *
32445523 CGTGAGGTGCATTTAAATCTTACCTCAGGAGATACTTCATCCAACATCTCCCCCCGGAGGTAAAT
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCGAAGGTAAAT
* * *
32445588 ATATAATTGGGTTACCGTGCCCCTCTCATAGGTAGTCCACGAAAACCCCCACCACTACAGTGAC
66 ATATAATTGGGTTACCATACCCCTCTCATAGGCAGTCCACGAAAACCCCCACCACTACAGTGAC
32445652 CGT
1 CGT
32445655 TTAATATACC
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 121 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (129 bp):
CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCGAAGGTAAAT
ATATAATTGGGTTACCATACCCCTCTCATAGGCAGTCCACGAAAACCCCCACCACTACAGTGAC
Found at i:32456417 original size:25 final size:26
Alignment explanation
Indices: 32456382--32456445 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
32456372 TCTTGTCCCT
*
32456382 TTGCCGTGTTTCTACTGCAATACTAC
1 TTGCCGTGTTTCTACCGCAATACTAC
32456408 -TGCCGTGTTTCTACCGCAATACTAC
1 TTGCCGTGTTTCTACCGCAATACTAC
32456433 TTTGCCGTGTTTC
1 -TTGCCGTGTTTC
32456446 CACGCGATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
25 24 0.69
27 11 0.31
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.39
Consensus pattern (26 bp):
TTGCCGTGTTTCTACCGCAATACTAC
Found at i:32456974 original size:21 final size:21
Alignment explanation
Indices: 32456950--32456992 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32456940 TTAATGGACG
*
32456950 TGGGTTAGGACAGTATGGGAT
1 TGGGTTAGGACAGTAAGGGAT
*
32456971 TGGGTTAGGAGAGTAAGGGAT
1 TGGGTTAGGACAGTAAGGGAT
32456992 T
1 T
32456993 CTGGCTTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.44, T:0.28
Consensus pattern (21 bp):
TGGGTTAGGACAGTAAGGGAT
Found at i:32457805 original size:33 final size:33
Alignment explanation
Indices: 32457764--32457850 Score: 106
Period size: 31 Copynumber: 2.7 Consensus size: 33
32457754 ATTAATCCCT
*
32457764 ATACTTTATAAAAATATTAAATTTTTAGTCCTC
1 ATACTTTATCAAAATATTAAATTTTTAGTCCTC
* * * *
32457797 ATATTTTATCAAAATGTTTAA--TTTAGTCTTC
1 ATACTTTATCAAAATATTAAATTTTTAGTCCTC
*
32457828 ATACTCTATCAAAATATTAAATT
1 ATACTTTATCAAAATATTAAATT
32457851 GAGTTTTTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 26 0.60
33 17 0.40
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.46
Consensus pattern (33 bp):
ATACTTTATCAAAATATTAAATTTTTAGTCCTC
Found at i:32463298 original size:2 final size:2
Alignment explanation
Indices: 32463291--32463322 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
32463281 CCCTCGTTTA
*
32463291 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32463323 GAAAATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32471980 original size:75 final size:74
Alignment explanation
Indices: 32471857--32472005 Score: 253
Period size: 75 Copynumber: 2.0 Consensus size: 74
32471847 ATAAGGCTGG
32471857 ACAGATCATTGATTACTCTCTATTTGTACACAAAGTCTCTGGTGCAATAACAGAGCTCTATTTGC
1 ACAGATCATTGATTACTCTCTATTTGTACACAAAGTCTCTGGTGCAATAACAGAGCTCTA-TTGC
32471922 TCAAAATTGA
65 TCAAAATTGA
* * * *
32471932 ACAGATCATTGATTACTCTCTATTTGTACACAAAGTTTCTTGTGCAATAACATAGCTCTATTGGT
1 ACAGATCATTGATTACTCTCTATTTGTACACAAAGTCTCTGGTGCAATAACAGAGCTCTATTGCT
32471997 CAAAATTGA
66 CAAAATTGA
32472006 TGTTTTGTCA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 13 0.19
75 57 0.81
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (74 bp):
ACAGATCATTGATTACTCTCTATTTGTACACAAAGTCTCTGGTGCAATAACAGAGCTCTATTGCT
CAAAATTGA
Found at i:32472785 original size:29 final size:29
Alignment explanation
Indices: 32472716--32472788 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
32472706 ATTGTTCTCG
* *
32472716 TATACCTATTCTCGTACAACTTCTTATCC
1 TATACCTTTTCACGTACAACTTCTTATCC
* *
32472745 TATA-CTTGTTCACGTACAACTTCTTCTCT
1 TATACCTT-TTCACGTACAACTTCTTATCC
*
32472774 TTTACCTTTTCACGT
1 TATACCTTTTCACGT
32472789 GTACCTCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.05
29 32 0.86
30 3 0.08
ACGTcount: A:0.21, C:0.29, G:0.05, T:0.45
Consensus pattern (29 bp):
TATACCTTTTCACGTACAACTTCTTATCC
Found at i:32480182 original size:8 final size:8
Alignment explanation
Indices: 32480151--32480185 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
32480141 TGGATAAATG
*
32480151 ATAAATAA
1 ATAAATAT
*
32480159 ATAAATAC
1 ATAAATAT
32480167 ATAAATAT
1 ATAAATAT
32480175 ATAAATAT
1 ATAAATAT
32480183 ATA
1 ATA
32480186 TTTATTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAAATAT
Found at i:32482217 original size:17 final size:17
Alignment explanation
Indices: 32482195--32482228 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32482185 TTAAATTATT
*
32482195 AATTTGGATATACAAAA
1 AATTTGGAAATACAAAA
32482212 AATTTGGAAATACAAAA
1 AATTTGGAAATACAAAA
32482229 TAAAATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (17 bp):
AATTTGGAAATACAAAA
Done.